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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ), 'gf_id' => 'HOM05D001076', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001076' ), 'data_identifier' => 'HOM05D001076', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001076', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02820' => 'bna', 'A02p42160' => 'bna', 'A03p06760' => 'bna', 'A03p63920' => 'bna', 'A05p25150' => 'bna', 'A07p41480' => 'bna', 'A08p01120' => 'bna', 'A08p21620' => 'bna', 'A09p11540' => 'bna', 'A09p11550' => 'bna', 'A09p43430' => 'bna', 'A09p68970' => 'bna', 'A10p18920' => 'bna', 'Aa31LG1G13620' => 'aar', 'Aa31LG1G14580' => 'aar', 'Aa31LG6G12840' => 'aar', 'Aa31LG8G14430' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2161' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.5227' => 'aag', 'Actinidia02366' => 'ach', 'Actinidia06991' => 'ach', 'Actinidia15451' => 'ach', 'Actinidia17413' => 'ach', 'Actinidia17414' => 'ach', 'Actinidia22946' => 'ach', 'Actinidia24477' => 'ach', 'Actinidia28722' => 'ach', 'Actinidia28723' => 'ach', 'Actinidia35668' => 'ach', 'Ah.00g000770' => 'amhyb', 'Ah.01g014660' => 'amhyb', 'Ah.02g123300' => 'amhyb', 'Ah.03g143210' => 'amhyb', 'AL2G35990' => 'aly', 'AL6G32780' => 'aly', 'AL7G15160' => 'aly', 'AL8G45490' => 'aly', 'Aqoxy1G00101' => 'aox', 'Aqoxy5G02362' => 'aox', 'Aqoxy6G02124' => 'aox', 'arahy.Tifrunner.gnm1.ann1.52XSZL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8AT62F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AA7KSY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DIB5MP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G00RBV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GW5Q3X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LSK0UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q38LJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q99BEQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S17AEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XZS3UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YJWL0V' => 'arhy', 'AT4G35890' => 'ath', 'AT5G21160' => 'ath', 'AT5G66100' => 'ath', 'ATR0307G062' => 'atr', 'ATR0994G004' => 'atr', 'Atru.chr13.243' => 'acertr', 'Atru.chr2.992' => 'acertr', 'Atru.chr3.2884' => 'acertr', 'Atru.chr3.882' => 'acertr', 'Atru.chr3.893' => 'acertr', 'Atru.chr7.2367' => 'acertr', 'Atru.chr7.2487' => 'acertr', 'AUR62003706' => 'cqu', 'AUR62018014' => 'cqu', 'AUR62025106' => 'cqu', 'AUR62037158' => 'cqu', 'BcaB01g04759' => 'bca', 'BcaB01g04761' => 'bca', 'BcaB03g12431' => 'bca', 'BcaB04g20125' => 'bca', 'BcaB05g22768' => 'bca', 'BcaB07g31706' => 'bca', 'BcaB07g31708' => 'bca', 'BcaB08g36479' => 'bca', 'BcaC01g00526' => 'bca', 'BcaC03g13841' => 'bca', 'BcaC04g19520' => 'bca', 'BcaC04g22945' => 'bca', 'BcaC04g23112' => 'bca', 'BcaC08g47091' => 'bca', 'BcaNung04884' => 'bca', 'BcaNung05056' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01060' => 'bna', 'BolC1t00300H' => 'bol', 'BolC2t07110H' => 'bol', 'BolC3t20355H' => 'bol', 'BolC7t40905H' => 'bol', 'BolC7t46565H' => 'bol', 'BolC9t54094H' => 'bol', 'BolC9t54250H' => 'bol', 'BolC9t58351H' => 'bol', 'BraA01t00265Z' => 'bra', 'BraA02t05622Z' => 'bra', 'BraA03t15461Z' => 'bra', 'BraA06t26086Z' => 'bra', 'BraA08t33357Z' => 'bra', 'BraA08t34109Z' => 'bra', 'BraA09t36660Z' => 'bra', 'BraA09t36798Z' => 'bra', 'BraA09t36801Z' => 'bra', 'BraA10t43969Z' => 'bra', 'C01p03150' => 'bna', 'C03p80960' => 'bna', 'C04p04360' => 'bna', 'C05p19700' => 'bna', 'C07p05070' => 'bna', 'C07p11540' => 'bna', 'C07p61390' => 'bna', 'C09p12040' => 'bna', 'C09p13590' => 'bna', 'C09p13600' => 'bna', 'C09p54900' => 'bna', 'CAN.G311.57' => 'can', 'CAN.G576.3' => 'can', 'CAN.G576.6' => 'can', 'CAN.G65.193' => 'can', 'CANSAT01G3132' => 'cansat', 'CANSAT54G1858' => 'cansat', 'CARHR108140' => 'chi', 'CARHR108150' => 'chi', 'CARHR191710' => 'chi', 'CARHR244280' => 'chi', 'CARHR281650' => 'chi', 'Carub.0003s3190' => 'cru', 'Carub.0006s1947' => 'cru', 'Carub.0007s0434' => 'cru', 'Carub.0008s2839' => 'cru', 'Ca_03634_v3' => 'car', 'Ca_06162_v3' => 'car', 'Ca_15475_v3' => 'car', 'Ca_24935_v3' => 'car', 'CBR_g40192' => 'cbr', 'Cc01_g06920' => 'ccan', 'Cc07_g11180' => 'ccan', 'Cc10_g01320' => 'ccan', 'CDE02G0571' => 'cde', 'CDE02G0950' => 'cde', 'CDE02G2854' => 'cde', 'CDE04G2270' => 'cde', 'CDE07G1662' => 'cde', 'CDE08G0510' => 'cde', 'CDE08G1369' => 'cde', 'CDE09G0323' => 'cde', 'Cfa007017' => 'cfa', 'Cfa010270' => 'cfa', 'Cfa013990' => 'cfa', 'Cfa026493' => 'cfa', 'Ciclev10000767m.g' => 'ccl', 'Ciclev10014180m.g' => 'ccl', 'Ciclev10025634m.g' => 'ccl', 'CiPaw.07G061900' => 'cil', 'CiPaw.07G145200' => 'cil', 'CiPaw.08G068500' => 'cil', 'CiPaw.08G127500' => 'cil', 'CiPaw.13G121400' => 'cil', 'ClCG01G020520' => 'cla', 'ClCG02G024230' => 'cla', 'ClCG05G015530' => 'cla', 'COL.COLO4_08819' => 'col', 'COL.COLO4_15527' => 'col', 'COL.COLO4_18350' => 'col', 'COL.COLO4_22479' => 'col', 'COL.COLO4_22480' => 'col', 'COL.COLO4_24219' => 'col', 'COL.COLO4_26105' => 'col', 'COL.COLO4_26106' => 'col', 'Cpa.g.sc26.285' => 'cpa', 'Cpa.g.sc26.286' => 'cpa', 'Cpa.g.sc34.222' => 'cpa', 'Cpa.g.sc34.223' => 'cpa', 'Cpa.g.sc6.300' => 'cpa', 'Cre10.g441200' => 'cre', 'CsaV3_3G046030' => 'csa', 'CsaV3_4G017360' => 'csa', 'CsaV3_6G047400' => 'csa', 'CsaV3_6G047420' => 'csa', 'CSS0006132' => 'camsi', 'CSS0013209' => 'camsi', 'CSS0031735' => 'camsi', 'CSS0032713' => 'camsi', 'CSS0035951' => 'camsi', 'DCAR_011612' => 'dca', 'DCAR_013887' => 'dca', 'DCAR_016736' => 'dca', 'DCAR_022939' => 'dca', 'DCAR_027262' => 'dca', 'DCAR_028376' => 'dca', 'Dinv08560' => 'din', 'Dinv10718' => 'din', 'Dinv10719' => 'din', 'Dinv24006' => 'din', 'Dinv31880' => 'din', 'Dinv39547' => 'din', 'Duzib093G0045' => 'dzi', 'Duzib116G0334' => 'dzi', 'Duzib147G0727' => 'dzi', 'Duzib168G0566' => 'dzi', 'Duzib168G1535' => 'dzi', 'Duzib168G1575' => 'dzi', 'Duzib168G1797' => 'dzi', 'Duzib170G0755' => 'dzi', 'Duzib187G1973' => 'dzi', 'Duzib264G0858' => 'dzi', 'ECA232G1530' => 'eca', 'ECA233G3641' => 'eca', 'ECA238G0666' => 'eca', 'ECA238G1726' => 'eca', 'ECA238G4049' => 'eca', 'EL10Ac1g02138' => 'bvu', 'EL10Ac6g15166' => 'bvu', 'EL10Ac9g22356' => 'bvu', 'Eucgr.B03778' => 'egr', 'Eucgr.F01675' => 'egr', 'Eucgr.F03731' => 'egr', 'Eucgr.I02318' => 'egr', 'Eucgr.J02483' => 'egr', 'FAN07G1864' => 'fan', 'FAN07G1992' => 'fan', 'FAN10G0907' => 'fan', 'FAN11G3590' => 'fan', 'FAN12G0816' => 'fan', 'FAN12G3208' => 'fan', 'FAN15G2372' => 'fan', 'FAN16G3163' => 'fan', 'FAN17G0936' => 'fan', 'FAN17G1027' => 'fan', 'FAN17G2311' => 'fan', 'FAN19G0158' => 'fan', 'FAN20G0221' => 'fan', 'FAN21G2026' => 'fan', 'FAN22G1688' => 'fan', 'FAN22G1813' => 'fan', 'FAN23G2699' => 'fan', 'FAN25G2397' => 'fan', 'FAN25G3724' => 'fan', 'FAN26G0382' => 'fan', 'FAN27G0608' => 'fan', 'FAN28G0595' => 'fan', 'FvH4_1g11260' => 'fve', 'FvH4_2g38070' => 'fve', 'FvH4_3g02470' => 'fve', 'FvH4_3g27710' => 'fve', 'FvH4_4g29920' => 'fve', 'FvH4_4g29960' => 'fve', 'Glyma.01G163300' => 'gma', 'Glyma.02G045400' => 'gma', 'Glyma.02G275300' => 'gma', 'Glyma.04G021900' => 'gma', 'Glyma.06G022100' => 'gma', 'Glyma.11G080100' => 'gma', 'Glyma.14G040900' => 'gma', 'Glyma.14G221100' => 'gma', 'Glyma.16G123100' => 'gma', 'Glyma.17G260000' => 'gma', 'Gohir.A01G109600' => 'ghi', 'Gohir.A02G072300' => 'ghi', 'Gohir.A02G173300' => 'ghi', 'Gohir.A02G173400' => 'ghi', 'Gohir.A03G034600' => 'ghi', 'Gohir.A05G101900' => 'ghi', 'Gohir.A11G041200' => 'ghi', 'Gohir.A11G172800' => 'ghi', 'Gohir.D01G096400' => 'ghi', 'Gohir.D03G006500' => 'ghi', 'Gohir.D03G006600' => 'ghi', 'Gohir.D03G133700' => 'ghi', 'Gohir.D05G101600' => 'ghi', 'Gohir.D11G044500' => 'ghi', 'Gohir.D11G179600' => 'ghi', 'Gorai.002G121900' => 'gra', 'Gorai.003G006800' => 'gra', 'Gorai.003G006900' => 'gra', 'Gorai.003G140800' => 'gra', 'Gorai.007G047800' => 'gra', 'Gorai.007G191700' => 'gra', 'Gorai.009G105800' => 'gra', 'GSVIVG01006333001' => 'vvi', 'GSVIVG01009971001' => 'vvi', 'GSVIVG01029892001' => 'vvi', 'GSVIVG01037494001' => 'vvi', 'HanXRQChr06g0180661' => 'han', 'HanXRQChr09g0245191' => 'han', 'HanXRQChr09g0245211' => 'han', 'HanXRQChr09g0257361' => 'han', 'HanXRQChr10g0303331' => 'han', 'HanXRQChr11g0342711' => 'han', 'HanXRQChr13g0386901' => 'han', 'HanXRQChr13g0414561' => 'han', 'HanXRQChr14g0429641' => 'han', 'HanXRQChr14g0441741' => 'han', 'HanXRQChr16g0531761' => 'han', 'Haze_03714' => 'cav', 'Haze_22677' => 'cav', 'Haze_23682' => 'cav', 'Hma1.2p1_0315F.1_g122430' => 'hma', 'Hma1.2p1_0733F.1_g210100' => 'hma', 'Hma1.2p1_1632F.1_g294685' => 'hma', 'HPP92_012438' => 'vpl', 'HPP92_012945' => 'vpl', 'HPP92_014534' => 'vpl', 'HPP92_015016' => 'vpl', 'HPP92_025900' => 'vpl', 'HPP92_025905' => 'vpl', 'HPP92_025906' => 'vpl', 'HPP92_028183' => 'vpl', 'Hund08090' => 'sun', 'Hund14068' => 'sun', 'Hund16513' => 'sun', 'Lalb_Chr01g0008541' => 'lal', 'Lalb_Chr03g0033491' => 'lal', 'Lalb_Chr04g0249621' => 'lal', 'Lalb_Chr09g0321501' => 'lal', 'Lalb_Chr16g0377401' => 'lal', 'Lalb_Chr16g0391461' => 'lal', 'Lalb_Chr17g0347591' => 'lal', 'Lalb_Chr19g0131511' => 'lal', 'Lj1A247T60' => 'lonja', 'Lj1A247T62' => 'lonja', 'Lj1C272T10' => 'lonja', 'Lj1C272T11' => 'lonja', 'Lj1g0020044' => 'lja', 'Lj2A482G64' => 'lonja', 'Lj2g0023288' => 'lja', 'Lj4A19T11' => 'lonja', 'Lj4A800G36' => 'lonja', 'Lj4C223T13' => 'lonja', 'Lj4g0022960' => 'lja', 'Lj5g0020448' => 'lja', 'LjContig00564g0003968' => 'lja', 'Lsat_1_v5_gn_2_38521' => 'lsa', 'Lsat_1_v5_gn_2_75581' => 'lsa', 'Lsat_1_v5_gn_2_7780' => 'lsa', 'Lsat_1_v5_gn_3_18221' => 'lsa', 'Lsat_1_v5_gn_3_71121' => 'lsa', 'Lsat_1_v5_gn_3_71141' => 'lsa', 'Lsat_1_v5_gn_3_71281' => 'lsa', 'Lsat_1_v5_gn_4_144940' => 'lsa', 'Lsat_1_v5_gn_8_29700' => 'lsa', 'Manes.01G150000' => 'mes', 'Manes.02G109100' => 'mes', 'Manes.05G144300' => 'mes', 'Manes.05G195600' => 'mes', 'Manes.18G011260' => 'mes', 'Mapoly0082s0081' => 'mpo', 'MBI03_g46669_MAGBIO' => 'mbi', 'MBI04_g41766_MAGBIO' => 'mbi', 'MBI08_g12328_MAGBIO' => 'mbi', 'MBI19_g06402_MAGBIO' => 'mbi', 'MBI19_g07017_MAGBIO' => 'mbi', 'MCO09G092' => 'mco', 'MCO09G615' => 'mco', 'MD00G1106400' => 'mdo', 'MD02G1125000' => 'mdo', 'MD08G1009300' => 'mdo', 'MD11G1175800' => 'mdo', 'MD11G1176000' => 'mdo', 'MD11G1176100' => 'mdo', 'MD11G1183000' => 'mdo', 'MD15G1008200' => 'mdo', 'MD15G1240700' => 'mdo', 'Medtr1g025920' => 'mtr', 'Medtr3g114340' => 'mtr', 'Medtr3g114450' => 'mtr', 'Medtr5g022790' => 'mtr', 'Medtr5g027770' => 'mtr', 'Medtr5g027780' => 'mtr', 'Medtr5g088005' => 'mtr', 'Medtr5g088200' => 'mtr', 'Medtr8g075120' => 'mtr', 'MELO3C003736.2' => 'cme', 'MELO3C007932.2' => 'cme', 'MELO3C007933.2' => 'cme', 'MELO3C014708.2' => 'cme', 'Migut.D00698' => 'egut', 'Migut.L00906' => 'egut', 'Migut.L00908' => 'egut', 'Migut.L00970' => 'egut', 'Migut.N02395' => 'egut', 'Migut.N03180' => 'egut', 'MSTRG.12429' => 'ama', 'MSTRG.15584' => 'ama', 'MSTRG.17645' => 'ama', 'MSTRG.24233' => 'ama', 'MSTRG.25270' => 'ama', 'Nitab4.5_0000188g0170' => 'nta', 'Nitab4.5_0000188g0180' => 'nta', 'Nitab4.5_0001647g0110' => 'nta', 'Nitab4.5_0002337g0100' => 'nta', 'Nitab4.5_0002337g0160' => 'nta', 'Nitab4.5_0002368g0120' => 'nta', 'Nitab4.5_0008247g0010' => 'nta', 'Nitab4.5_0008954g0030' => 'nta', 'Nitab4.5_0010831g0020' => 'nta', 'Nitab4.5_0010831g0040' => 'nta', 'Nn1g08888' => 'nnu', 'Nn5g28414' => 'nnu', 'Nn5g30805' => 'nnu', 'Nn6g31956' => 'nnu', 'Nn7g37238' => 'nnu', 'Oeu013880.1' => 'oeu', 'Oeu014018.1' => 'oeu', 'Oeu025934.1' => 'oeu', 'Oeu026634.2' => 'oeu', 'Oeu032039.2' => 'oeu', 'Oeu039729.1' => 'oeu', 'Oeu051160.1' => 'oeu', 'Os01g0266000' => 'osa', 'Os03g0156500' => 'osa', 'Os03g0859300' => 'osa', 'Os09g0540900' => 'osa', 'Peaxi162Scf00328g00319' => 'pax', 'Peaxi162Scf00355g00111' => 'pax', 'Peaxi162Scf00439g00410' => 'pax', 'Peaxi162Scf00672g00047' => 'pax', 'Peaxi162Scf00973g00315' => 'pax', 'PGR083G0773' => 'pgr', 'PGR102G0053' => 'pgr', 'PGR102G2311' => 'pgr', 'PGR119G1496' => 'pgr', 'PGSC0003DMG400009440' => 'stu', 'PGSC0003DMG400009948' => 'stu', 'Phvul.001G004033' => 'pvu', 'Phvul.001G004100' => 'pvu', 'Phvul.002G105500' => 'pvu', 'Phvul.003G266200' => 'pvu', 'Phvul.008G206300' => 'pvu', 'Phvul.009G018800' => 'pvu', 'Potri.001G220100' => 'ptr', 'Potri.005G109400' => 'ptr', 'Potri.005G243600' => 'ptr', 'Potri.007G063600' => 'ptr', 'Potri.009G018100' => 'ptr', 'Pp3c11_24960' => 'ppa', 'Pp3c7_8450' => 'ppa', 'PRCOL_00001169' => 'pco', 'Prupe.1G361000' => 'ppe', 'Prupe.3G218300' => 'ppe', 'Prupe.6G155800' => 'ppe', 'Prupe.7G173400' => 'ppe', 'Psat2g021800' => 'psa', 'Psat2g152440' => 'psa', 'Psat4g102240' => 'psa', 'Psat5g011240' => 'psa', 'Psat6g001640' => 'psa', 'PSO017G0295' => 'pso', 'PSO170G1085' => 'pso', 'PSO170G2829' => 'pso', 'PSO339G2170' => 'pso', 'PSO339G3694' => 'pso', 'PSO339G4393' => 'pso', 'PSO339G4673' => 'pso', 'PSO384G3024' => 'pso', 'PSO541G3239' => 'pso', 'PSO675G1812' => 'pso', 'PSO700G0118' => 'pso', 'QL01p007505' => 'qlo', 'QL02p012478' => 'qlo', 'QL04p027419' => 'qlo', 'QL06p051361' => 'qlo', 'RcHm_v2.0_Chr2g0098711' => 'rch', 'RcHm_v2.0_Chr5g0050001' => 'rch', 'RcHm_v2.0_Chr6g0303491' => 'rch', 'Rhsim06G0017700' => 'rsi', 'Rhsim08G0031300' => 'rsi', 'Rhsim10G0206800' => 'rsi', 'Rhsim13G0202000' => 'rsi', 'Sabra05G0089600' => 'sbr', 'Sabra05G0188600' => 'sbr', 'Sabra09G0010600' => 'sbr', 'SalBow1G1041' => 'sbo', 'SalBow1G7773' => 'sbo', 'SalBow3G3618' => 'sbo', 'SalBow5G1953' => 'sbo', 'SalBow5G2858' => 'sbo', 'SalBow6G1288' => 'sbo', 'SalBow6G1880' => 'sbo', 'SalBow6G5099' => 'sbo', 'SalBow7G3509' => 'sbo', 'Sc02g0008750' => 'sci', 'Sc07g0001160' => 'sci', 'Sc15g0004760' => 'sci', 'Sc16g0001880' => 'sci', 'Sc21g0000250' => 'sci', 'Sed0000524' => 'sed', 'Sed0002729' => 'sed', 'Sed0015489' => 'sed', 'Sed0024490' => 'sed', 'Sed0024981' => 'sed', 'Sed0025993' => 'sed', 'SEGI_14698' => 'sgi', 'SGA_v2.0_scaffold145G36079' => 'sas', 'SGA_v2.0_scaffold19G08565' => 'sas', 'SGA_v2.0_scaffold25G11206' => 'sas', 'SGA_v2.0_scaffold29G12156' => 'sas', 'SGA_v2.0_scaffold79G25564' => 'sas', 'SMO119G0028' => 'smo', 'SMO119G0511' => 'smo', 'Solyc02g061960.3' => 'sly', 'Solyc02g061980.3' => 'sly', 'Solyc04g081820.3' => 'sly', 'Solyc06g073550.3' => 'sly', 'Sopen02g012920' => 'spe', 'Sopen02g012940' => 'spe', 'Sopen04g035450' => 'spe', 'Sopen06g029910' => 'spe', 'Sp2g30590' => 'spa', 'Sp5g31090' => 'spa', 'Sp6g23360' => 'spa', 'Sp7g33670' => 'spa', 'TAR376G0348' => 'tar', 'TAR376G0483' => 'tar', 'TAR376G0893' => 'tar', 'TAR381G0626' => 'tar', 'TAR381G0800' => 'tar', 'TAR381G1569' => 'tar', 'TAR401G0001' => 'tar', 'TAR625G1154' => 'tar', 'TAR628G0873' => 'tar', 'TAR628G1081' => 'tar', 'TAR628G1454' => 'tar', 'TAR636G0566' => 'tar', 'THA.LOC104807509' => 'tha', 'THA.LOC104810960' => 'tha', 'THA.LOC104815093' => 'tha', 'THA.LOC104819169' => 'tha', 'THA.LOC104819738' => 'tha', 'Thecc.01G013200' => 'tca', 'Thecc.08G049100' => 'tca', 'Thecc.09G338800' => 'tca', 'Thhalv10012690m.g' => 'esa', 'Thhalv10024905m.g' => 'esa', 'TPR.G11306' => 'tpr', 'TPR.G19509' => 'tpr', 'TPR.G202' => 'tpr', 'TPR.G25128' => 'tpr', 'TPR.G26377' => 'tpr', 'TPR.G38088' => 'tpr', 'TWI31G1498' => 'twi', 'TWI36G1177' => 'twi', 'TWI53G0756' => 'twi', 'TWI56G0858' => 'twi', 'TWI73G0370' => 'twi', 'TWI79G0397' => 'twi', 'unitig_0.g2091' => 'ugi', 'unitig_22.g5688' => 'ugi', 'unitig_22.g6183' => 'ugi', 'unitig_26.g9888' => 'ugi', 'unitig_27.g25135' => 'ugi', 'unitig_747.g21526' => 'ugi', 'vmacro04099' => 'vma', 'vmacro18431' => 'vma', 'vmacro21866' => 'vma', 'vmacro22201' => 'vma', 'vmacro23404' => 'vma', 'VMungo0251G2345' => 'vmu', 'VMungo0647G0253' => 'vmu', 'VMungo0647G0819' => 'vmu', 'VMungo0647G1732' => 'vmu', 'VMungo0647G2282' => 'vmu', 'VMungo1215G1291' => 'vmu', 'VMungo1309G2341' => 'vmu', 'Zm00001eb004290' => 'zma', 'Zm00001eb065130' => 'zma', 'Zm00001eb210380' => 'zma', 'Zm00001eb331850' => 'zma', 'Zm00001eb333210' => 'zma', 'Zm00001eb403210' => 'zma' ) $gf_id = 'HOM05D001076' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001076' ) $data_identifier = 'HOM05D001076' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 4, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 10, 'can' => (int) 4, 'cansat' => (int) 2, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 22, 'fve' => (int) 6, 'gma' => (int) 10, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 3, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 8, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 9, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 9, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 5, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 12, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403210' $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